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In Print: Last Week's Sequencing-Related Papers of Note: Feb 14, 2012

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A workflow for genome-wide mapping of archaeal transcription factors with ChIP-seq.
Wilbanks EG, Larsen DJ, Neches RY, et al.
Nucleic Acids Res. 2012 Feb 9. [Epub ahead of print]


Summarizing and correcting the GC content bias in high-throughput sequencing.
Benjamin i Y, Speed TP.
Nucleic Acids Res. 2012 Feb 9. [Epub ahead of print]


The Pseudomonas aeruginosa transcriptome in planktonic cultures and static biofilms using RNA sequencing.
Dötsch A, Eckweiler D, Schniederjans M, et al.
PLoS One. 2012;7(2):e31092.


Circular RNAs are the predominant transcript isoform from hundreds of human genes in diverse cell types.
Salzman J, Gawad C, Wang PL, Lacayo N, Brown PO.
PLoS One. 2012;7(2):e30733.


CAPRG: Sequence assembling pipeline for next generation sequencing of non-model organisms.
Rawat A, Elasri MO, Gust KA, et al.
PLoS One. 2012;7(2):e30370.


Tissue-specific whole transcriptome sequencing in castor, directed at understanding triacylglycerol lipid biosynthetic pathways.
Brown AP, Kroon JT, Swarbreck D, et al.
PLoS One. 2012;7(2):e30100.


Comparison between normalized and unnormalized 454-sequencing libraries for small-scale RNA-seq studies.
Ekblom R, Slate J, Horsburgh GJ, Birkhead T, Burke T.
Comp Funct Genomics. 2012;2012:281693.


The Drosophila melanogaster Genetic Reference Panel.
Mackay TF, Richards S, Stone EA, et al.
Nature. 2012 Feb 8;482(7384):173-8.


Draft genome of the pearl oyster Pinctada fucata: A platform for understanding bivalve biology.
Takeuchi T, Kawashima T, Koyanagi R, et al.
DNA Res. 2012 Feb 6. [Epub ahead of print]


Genome sequence and assembly of Bos indicus.
Canavez FC, Luche DD, Stothard P, et al.
J Hered. 2012 Feb 7. [Epub ahead of print]


Hydrodynamic shearing of DNA in a polymeric microfluidic device.
Nesterova IV, Hupert ML, Witek MA, Soper SA.
Lab Chip. 2012 Feb 7. [Epub ahead of print]


Size evolution and surface characterization of solid-state nanopores in different aqueous solutions.
Li Q, Zhao Q, Lu B, Zhang H, et al.
Nanoscale. 2012 Feb 7. [Epub ahead of print]


Length and GC-biases during sequencing library amplification: A comparison of various polymerase-buffer systems with ancient and modern DNA sequencing libraries.
Dabney J, Meyer M.
Biotechniques. 2012 Feb;52(2):87-94.


Knowledge-based reconstruction of mRNA transcripts with short sequencing reads for transcriptome research.
Seok J, Xu W, Jiang H, Davis RW, Xiao W.
PLoS One. 2012;7(2):e31440.


NGS QC Toolkit: A toolkit for quality control of next generation sequencing data.
Patel RK, Jain M.
PLoS One. 2012;7(2):e30619.


Micrococcal nuclease does not substantially bias nucleosome mapping.
Allan J, Fraser RM, Owen-Hughes T, Keszenman-Pereyra D.
J Mol Biol. 2012 Jan 30. [Epub ahead of print]


De novo analysis and functional classification of the transcriptome of the root lesion nematode, Pratylenchus thornei, after 454 GS FLX sequencing.
Nicol P, Gill R, Fosu-Nyarko J, Jones MG.
Int J Parasitol. 2012 Jan 21. [Epub ahead of print]


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